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Series GSE228395 Query DataSets for GSE228395
Status Public on Nov 22, 2023
Title Selective compartmentalization in condensin-depleted mitotic chromosomes [HiC-C]
Organism Mus musculus
Experiment type Other
Summary During mitosis, condensin activity is thought to disrupt interphase chromatin structures. Here, we utilize condensin-deficient mitotic chromosomes as a unique architectural platform to further investigate genome folding principles. Upon condensin loss, compartments progressively emerge in mitotic chromosomes. Euchromatin diverges into two different compartments A1 and A2, the former of which shows strong homotypic interactions while the latter exhibit reduced self-aggregation. Constitutive heterochromatin (B1) displays reduced level of compartmentalization and the normally inert facultative heterochromatin (B2) participates to compartmentalize the genome. Dynamically, A1 compartment is established remarkably fast with similarly efficient separation from B1 while reformation of B1 is delayed, implying that A1 self-attraction is the engine to compartmentalizalize the condensin-depleted mitotic chromosomes. Notified by the mitotic compartmentalization of B1 which lacks HP1 binding, we sought to explore the role of HP1 proteins in genome folding and demonstrat that HP1& are dispensible for chromatin structural restoration during cell divison. Our observations unveil delicate patterns and novel principles of genome compartmentalization that are otherwise hidden in interphase cells.
Overall design G1E-ER4:SMC2-mAID-mCherry cells were first arrested to prometaphase with nocodazole (200ng/ml) for 12 hours or 15 hours (for 8h release condition). Toward the end of mitotic arrest, cells were treated with auxin (1mM) for 0h (SMC2+), 0.5 hours, 1 hour, 4 hours or 8 hours respectively.
Web link
Contributor(s) Zhang H, Liu F, Blobel G
Citation(s) 38014261
Submission date Mar 28, 2023
Last update date Dec 14, 2023
Contact name Haoyue Zhang
Organization name Shenzhen Bay Lab
Street address Gaoke Innovation Center, Guangqiao Road, Guangming District, Shenzhen
City Shenzhen
ZIP/Postal code 518107
Country China
Platforms (2)
GPL19057 Illumina NextSeq 500 (Mus musculus)
GPL28330 DNBSEQ-T7 (Mus musculus)
Samples (14)
GSM7120225 SMC2_asyn_rep1
GSM7120226 SMC2_asyn_rep2
GSM7120227 SMC2_Noc_auxin_0h_rep1
This SubSeries is part of SuperSeries:
GSE228402 Selective compartmentalization in condensin-depleted mitotic chromosomes
BioProject PRJNA949628

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Supplementary file Size Download File type/resource
GSE228395_RAW.tar 11.1 Gb (http)(custom) TAR (of COOL, HIC)
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Raw data are available in SRA
Processed data provided as supplementary file

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